MDL Chime

The predictions are sent back to the client web browser and visualized using a combination of HTML, JavaScript [50], MDL Chime [51] scripting, and Java applets. 

This powerful system maximizes the students learning experience and, at the same time, reduces faculty workload and helps facilitate instruction. OWL also uses the MDL Chime application to assist students with viewing structures of organic compounds. New to this edition are 15 to 20 end-of-chapter problems per chapter, denoted by a icon, which are assignable in OWL. A fee-based access code is required for OWL. 

The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB-PDB at http //www.rcsb.org/pdb/home/home.do is the online source for X-ray and NMR structural data. Many software programs mentioned in Section 4.5 include the facihty to visualize imported data however, two free software programs operate well in this regard. One is MDL Chime described previously in this section. Chime, a chemical structure visualization plug-in for Internet Explorer and Netscape Communicator, supports a wide variety of molecule coordinate formats, including PDB (protein data bank), Molfile (from ISIS/Draw), MOP (MOPAC input hies), and GAU (Gaussian Input hies). 

One important visualization technique that users should acquire is the ability to transform two-dimensional stereoviews into three dimensions. The stereoviews may be found in visualization software such as MDL Chime and RasMol.They are also found in journal articles in Science or Nature and others, especially those describing new biomolecule X-ray crystallographic or NMR solution structures. The following hints for learning to transform the stereoviews come from the extremely helpful website http //www.usm.mame. edu/ rhodes/OHelp/StereoView.html. 

AUTONOM STANDARD MDLISIS/ORAW MDL CHIME MDL DATA ANALYSIS TOOLBOX... 

Chime Molecule viewer http //www.mdl.com/products/framework/chime/... 

Web-based chemistry is a reality. With MDL s Chemscape Server and Chime Pro family of products, scientists can read interactive chemistry documents, perform chemical database searches, and reach out to the wealth of chemical and biological information available on the Web. First introduced in 1997, the Chemscape and Chime Pro solutions have become industry standards for communicating chemical information on the Web and for accessing, searching, and visualizing "live" chemical structures within Web environments. 

MDL s Chemscape Server and Chime Pro product suite is an integrated set of tools for chemical structure illustration, communication, and database searching. Chime and Chime Pro are chemical structure visualization programs that run in the most popular Web browsers. 

Download a free copy of Chime, MDL s chemical structure plug-in, and see how easy it is to include dynamic chemical structures in your Web pages. See what people are doing with Chime. Click here for links to great Chime sites. 

Structure rendering and editing tools There are so many mature commercial products from which to pick. MDL and CambridgeSoft are dominant in this arena. MDL offers proprietary solutions such as ISISBase/ISISDraw, a Web browser plug-in Chime, and, recently, Java and. NET based MDLDraw. ChemDraw from CambridgeSoft is another popular product. 

Structure editing Structure is properly drawn and entered into the system, which can be done using commercial chemical structure editing tools such as MDL ISISDraw (it has a Web browser plug-in, Chime), MDLDraw, which is aimed at replacing ISISDraw by MDL, and CambridgeSoft s ChemDraw. 

In such cases, it is possible to either use specialized software, designed for the particular purpose of chemical data display, such as Jmol (http //jmol.sourceforge.net/) or Chime (http //www.mdl.com/products/framework/chime/), or to convert data into a threedimensional-friendly format, such as VRML (Virtual Reality Modeling Language). 

This figure was prepared with the assistance of Robert M. Hanson s Origami program and the Chime plug-in (MDL) to Netscape. 

Chime The Chime plug-in displays 2D and 3D molecules directly within a web page and works with both Mozilla and Microsoft browsers. The molecules in the web page are "live, meaning they are not just pictures, but chemical structures that can be rotated, reformatted, and saved in various file formats for use in modeling or database software. http //www.mdl.com/products/ framework/chime/key features. jsp... 

Chime A plug-in that allows chemical structures to be displayed within a web page. The structures, which are embedded as mol files, can be viewed Interactively l.e. they can be rotated, expanded, exported, and rendered In RasMol. The program Is the copyright of MDL Information Systems, Inc., and is available free (subject to a license agreement). 

A downloadable version of Chime at the MDL website (free registration required)... 

The most important Plug-In for chemistry is Chime from MDL Information Sy.stems. Chime contains all the functionality of rasmol plus 2D-display features and extended script-ability for animations. A professional version which interfaces to MDL databases is also available. Chime is available for IRIX, PC, and Macintosh platforms, but not for anything else. Chime applications are described in Internet-based Computational Chemistry Tools. 

Since the development of the first network-capable visualization tools a lot of people have realized the importance of visualization possibilities in the communication among scientists. Therefore, many commercial organizations have developed viewers for chemical structures and data. All these products such as WebLab (MSI), Chime (MDL), and Molecular Inventor (SGI) have built-in basic chemistry knowledge. ... 

Chemscape Chime a Netscape Navigator plug-in that allows researchers to view chemical structures contained in HTML pages or tables. Chime is available for free from MDL s website. 

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